miRNA: 3'- -UCuuCUUCUUCU------------UUCUCUUCCc-CGUa -5'
miRNA: 3'- -UCUUCUUCUUCUUUCUCUUCCCCGUA- -5'
miRNA: 3'- -UCUUCUUCUUcUUUCUCU---------UCCCCGUA- -5'
Results 1 - 3 of 3 are showing below:
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| ID | Location | Perfect MFE.* | RefSeq Acc. | strand |
Start Position
|
R_P_ratio# | P value |
| Predicted miRNA align pattern | |||||||
| 28636 | 3' | -48.3 | NC_006003.1 | + | 714 | 0.68 | 0.059955 |
|
Target: 5'- gAGggGAGGGAGGgcgaagugaccuGAGAGGAGGaaGCGg -3' miRNA: 3'- -UCuuCUUCUUCU------------UUCUCUUCCc-CGUa -5' |
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| 28636 | 3' | -48.3 | NC_006003.1 | + | 786 | 1.07 | 0.000017 |
|
Target: 5'- gAGAAGAAGAAGAAAGAGAAGGGGCAUg -3' miRNA: 3'- -UCUUCUUCUUCUUUCUCUUCCCCGUA- -5' |
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| 28636 | 3' | -48.3 | NC_006003.1 | + | 858 | 0.8 | 0.005274 |
|
Target: 5'- uGGAGGAAGGGcGAAGAGAaauggacgaAGGGGCAUg -3' miRNA: 3'- -UCUUCUUCUUcUUUCUCU---------UCCCCGUA- -5' |
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Note:
When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.
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